Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
GABPA

Cell type

Cell type Class
Liver
Cell type
Hep G2
Primary Tissue
Liver
Tissue Diagnosis
Carcinoma Hepatocellular

Attributes by original data submitter

Sample

source_name
HepG2 cells
cell line
HepG2
cell type
Hepatocellular Carcinoma
chip antibody
GABPA, Santa Cruz Biotechnology, sc-28312

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cross-linked chromatin was immunoprecipitated with an antibody. The Protein:DNA crosslinks were then reversed and the DNA fragments were recovered and sequenced. Please see protocol notes below and go to http://hudsonalpha.org/myers-lab/protocols for the most current version of the protocol. Biological replicates from each experiment were completed. For RNA-seq polyA RNA was isolated using oligo dT beads, and libraries prepared. Illumina Single End

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
12239688
Reads aligned (%)
88.5
Duplicates removed (%)
8.9
Number of peaks
7140 (qval < 1E-05)

hg38

Number of total reads
12239688
Reads aligned (%)
89.9
Duplicates removed (%)
8.1
Number of peaks
7082 (qval < 1E-05)

Base call quality data from DBCLS SRA